"'sidecar' not found in columns" #38
Description
Trying to run
ba-tsconcat \
/ocean/projects/med220004p/bshresth/vannucci/all_runs/scripts/outputs/ANTS_FSL_noBBR_lenient/output/pipeline_cpac_fmriprep-options/ \
/ocean/projects/med220004p/shared/data_derived/vannucci/tsconcat/ANTs_FSL_noBBR_lenient/ \
group \
-c run \
-w 8 \
-f, getting
Index(['ds__dataset', 'ds__dataset_type', 'ds__dataset_path',
'ds__dataset_description', 'ent__sub', 'ent__ses', 'ent__sample',
'ent__task', 'ent__acq', 'ent__ce', 'ent__trc', 'ent__stain',
'ent__rec', 'ent__dir', 'ent__run', 'ent__mod', 'ent__echo',
'ent__flip', 'ent__inv', 'ent__mt', 'ent__part', 'ent__proc',
'ent__hemi', 'ent__space', 'ent__split', 'ent__recording', 'ent__chunk',
'ent__atlas', 'ent__res', 'ent__den', 'ent__label', 'ent__desc',
'ent__datatype', 'ent__suffix', 'ent__ext', 'ent__extra_entities',
'meta__json', 'finfo__file_path', 'finfo__link_target',
'finfo__mod_time'],
dtype='object')
ds__dataset ds__dataset_type ... finfo__link_target finfo__mod_time
0 None None ... None 1.711219e+09
1 None None ... None 1.711224e+09
2 None None ... None 1.711219e+09
3 None None ... None 1.711224e+09
4 None None ... None 1.711219e+09
... ... ... ... ... ...
73349 None None ... None 1.711151e+09
73350 None None ... None 1.711157e+09
73351 None None ... None 1.711157e+09
73352 None None ... None 1.711157e+09
73353 None None ... None 1.711154e+09
[73354 rows x 40 columns]
ds__dataset ds__dataset_type ... finfo__link_target finfo__mod_time
31 None None ... None 1.711220e+09
44 None None ... None 1.711240e+09
45 None None ... None 1.711242e+09
46 None None ... None 1.711220e+09
47 None None ... None 1.711220e+09
... ... ... ... ... ...
73339 None None ... None 1.711180e+09
73342 None None ... None 1.711177e+09
73345 None None ... None 1.711186e+09
73346 None None ... None 1.711177e+09
73349 None None ... None 1.711151e+09
[15486 rows x 40 columns]
Traceback (most recent call last):
File "/ocean/projects/med220004p/jclucas/.conda/envs/tsconcat/bin/ba-tsconcat", line 8, in <module>
sys.exit(main())
^^^^^^
File "/ocean/projects/med220004p/jclucas/.conda/envs/tsconcat/lib/python3.11/site-packages/tsconcat/cli.py", line 194, in main
df_reduced_bold = df_reduced_bold.astype(
^^^^^^^^^^^^^^^^^^^^^^^
File "/ocean/projects/med220004p/jclucas/.conda/envs/tsconcat/lib/python3.11/site-packages/pandas/core/generic.py", line 6605, in astype
raise KeyError(
KeyError: "Only a column name can be used for the key in a dtype mappings argument. 'sidecar' not found in columns."Additional info
# packages in environment at /ocean/projects/med220004p/jclucas/.conda/envs/tsconcat:
#
# Name Version Build Channel
_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
ba-tsconcat 0.1.1 pypi_0 pypi
bids2table 0.1.0b0 pypi_0 pypi
build 1.2.1 pypi_0 pypi
bzip2 1.0.8 h5eee18b_5
ca-certificates 2024.3.11 h06a4308_0
cachecontrol 0.14.0 pypi_0 pypi
certifi 2024.2.2 pypi_0 pypi
cffi 1.16.0 pypi_0 pypi
charset-normalizer 3.3.2 pypi_0 pypi
cleo 2.1.0 pypi_0 pypi
cpac 1.8.6.post1.dev1 pypi_0 pypi
crashtest 0.4.1 pypi_0 pypi
cryptography 42.0.5 pypi_0 pypi
distlib 0.3.8 pypi_0 pypi
docker 7.0.0 pypi_0 pypi
docker-pycreds 0.4.0 pypi_0 pypi
dockerpty 0.4.1 pypi_0 pypi
dulwich 0.21.7 pypi_0 pypi
elbow 0.1.1 pypi_0 pypi
fastjsonschema 2.19.1 pypi_0 pypi
filelock 3.13.4 pypi_0 pypi
idna 3.7 pypi_0 pypi
importlib-metadata 7.1.0 pypi_0 pypi
installer 0.7.0 pypi_0 pypi
jaraco-classes 3.4.0 pypi_0 pypi
jeepney 0.8.0 pypi_0 pypi
keyring 24.3.1 pypi_0 pypi
ld_impl_linux-64 2.38 h1181459_1
libffi 3.4.4 h6a678d5_0
libgcc-ng 11.2.0 h1234567_1
libgomp 11.2.0 h1234567_1
libstdcxx-ng 11.2.0 h1234567_1
libuuid 1.41.5 h5eee18b_0
markdown-it-py 3.0.0 pypi_0 pypi
mdurl 0.1.2 pypi_0 pypi
more-itertools 10.2.0 pypi_0 pypi
msgpack 1.0.8 pypi_0 pypi
ncurses 6.4 h6a678d5_0
nibabel 5.2.1 pypi_0 pypi
numpy 1.26.4 pypi_0 pypi
openssl 3.0.13 h7f8727e_0
packaging 24.0 pypi_0 pypi
pandas 2.2.2 pypi_0 pypi
pexpect 4.9.0 pypi_0 pypi
pip 23.3.1 pypi_0 pypi
pkginfo 1.10.0 pypi_0 pypi
platformdirs 4.2.1 pypi_0 pypi
poetry 1.8.2 pypi_0 pypi
poetry-core 1.9.0 pypi_0 pypi
poetry-plugin-export 1.7.1 pypi_0 pypi
ptyprocess 0.7.0 pypi_0 pypi
pyarrow 16.0.0 pypi_0 pypi
pycparser 2.22 pypi_0 pypi
pygments 2.17.2 pypi_0 pypi
pyproject-hooks 1.1.0 pypi_0 pypi
python 3.11.9 h955ad1f_0
python-dateutil 2.9.0.post0 pypi_0 pypi
pytz 2024.1 pypi_0 pypi
pyyaml 6.0.1 pypi_0 pypi
rapidfuzz 3.8.1 pypi_0 pypi
readline 8.2 h5eee18b_0
requests 2.31.0 pypi_0 pypi
requests-toolbelt 1.0.0 pypi_0 pypi
rich 13.7.1 pypi_0 pypi
secretstorage 3.3.3 pypi_0 pypi
semver 3.0.2 pypi_0 pypi
setuptools 68.2.2 pypi_0 pypi
shellingham 1.5.4 pypi_0 pypi
six 1.16.0 pypi_0 pypi
spython 0.3.13 pypi_0 pypi
sqlite 3.41.2 h5eee18b_0
tabulate 0.9.0 pypi_0 pypi
tk 8.6.12 h1ccaba5_0
tomlkit 0.12.4 pypi_0 pypi
tornado 6.4 pypi_0 pypi
tqdm 4.66.2 pypi_0 pypi
trove-classifiers 2024.4.10 pypi_0 pypi
typing-extensions 4.11.0 pypi_0 pypi
tzdata 2024.1 pypi_0 pypi
urllib3 2.2.1 pypi_0 pypi
virtualenv 20.26.0 pypi_0 pypi
websocket-client 1.8.0 pypi_0 pypi
wheel 0.41.2 pypi_0 pypi
xz 5.4.6 h5eee18b_0
zipp 3.18.1 pypi_0 pypi
zlib 1.2.13 h5eee18b_0